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si:ch211-214b16.3 si:ch211-214b16.3 [ Danio rerio (zebrafish) ]

Gene ID: 564346, updated on 17-Sep-2024

Summary

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Official Symbol
si:ch211-214b16.3provided by ZNC
Official Full Name
si:ch211-214b16.3provided by ZNC
Primary source
ZFIN:ZDB-GENE-081105-50
See related
Ensembl:ENSDARG00000074345 AllianceGenome:ZFIN:ZDB-GENE-081105-50
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
si:ch211-214b16.4
Summary
Predicted to be involved in intracellular signal transduction. [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See si:ch211-214b16.3 in Genome Data Viewer
Location:
chromosome: 3
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (60337975..60406192, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (60076983..60167521, complement)

Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene zgc:112183 Neighboring gene NACHT, LRR and PYD domains-containing protein 3-like Neighboring gene si:ch211-214b16.2 Neighboring gene uncharacterized LOC103910353 Neighboring gene si:ch73-366l1.5 Neighboring gene methyltransferase 23, arginine Neighboring gene jumonji domain containing 6, arginine demethylase and lysine hydroxylase

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. RIP2 Is a Critical Regulator for NLRs Signaling and MHC Antigen Presentation but Not for MAPK and PI3K/Akt Pathways. Wu XM, et al. Front Immunol, 2018. PMID 29692779, Free PMC Article
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
involved_in intracellular signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
NACHT, LRR and PYD domains-containing protein 3

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007114.7 Reference GRCz11 Primary Assembly

    Range
    60337975..60406192 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068219452.1 → XP_068075553.1  NACHT, LRR and PYD domains-containing protein 3 isoform X5

  2. XM_068219453.1 → XP_068075554.1  NACHT, LRR and PYD domains-containing protein 3 isoform X6

  3. XM_068219451.1 → XP_068075552.1  NACHT, LRR and PYD domains-containing protein 3 isoform X4

    Related
    ENSDARP00000136754.2, ENSDART00000160821.2

  4. XM_068219450.1 → XP_068075551.1  NACHT, LRR and PYD domains-containing protein 3 isoform X3

  5. XM_068219449.1 → XP_068075550.1  NACHT, LRR and PYD domains-containing protein 3 isoform X2

  6. XM_021474776.2 → XP_021330451.1  NACHT, LRR and PYD domains-containing protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A8M9Q5L6, F1Q5P9
    Related
    ENSDARP00000113322.2, ENSDART00000144030.3
    Conserved Domains (6) summary
    cd00116
    Location:983 → 1292
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:1037 → 1065
    LRR_RI; leucine-rich repeat [structural motif]
    sd00034
    Location:1240 → 1268
    LRR_AMN1; leucine-rich repeat [structural motif]
    cd16040
    Location:1309 → 1487
    SPRY_PRY_SNTX; Stonustoxin subunit alpha or SNTX subunit alpha
    pfam05729
    Location:507 → 674
    NACHT; NACHT domain
    pfam14484
    Location:418 → 486
    FISNA; Fish-specific NACHT associated domain
Nucleotide Protein
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